Filters and Multi-Channel Funnels
You should look at your Multi-Channel Funnels reports in an unfiltered profile. If you use a filtered profile that includes only a subset of your traffic, the filtered out visits will render your conversion path data incomplete and inaccurate.
Instead of using a filtered profile, use Conversion Segments, provided at the top left of Multi-Channel Funnels reports. If you must use a filtered profile, keep the following points in mind.
Never use a profile that filters visits by campaign, keyword, source, medium or content. Conversion paths are made up of interactions with these channels, so you should never filter based on them. Instead, use the Conversion Segments tool.
Never use a profile with filters that apply to URLs or pageviews. Filtering out pageviews may result in some visits not being tracked. In order to track a click, at least one of the visit's pageviews must be visible to Analytics.
Note that this warning only applies to inclusion/exclusion filters. Transform filters that do not remove pageviews or visits, but simply reformat or change the way that URLs appear in reports, should be safe.
Filters that filter out all the visits from a specific set of visitors - for example, excluding all visits from Paris, France - are least problematic. Typically, a visitor stays in a single geographic location, so in this case, you'd exclude all the visits from that visitor. This kind of filter is the least likely to cause errors in your conversion path data. Note, however, that if someone in Paris visits your site and then visits your site again while traveling outside of Paris, you'd only have a partial conversion path for that person. For this reason, it's best not to filter at all.